PUBLICATIONS
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Abhilash, L. and Shafer, O.T., (2022) A two-process model of Drosophila sleep reveals an inter-dependence between circadian clock speed and the rate of sleep pressure decay. bioRxiv 2022.08.12.503775; DOI: 10.1101/2022.08.12.503775
Chowdhury, B., Abhilash L., Ortega, A. Liu, S., and Shafer, O.T., (2022) Homeostatic Control of Deep sleep in Drosophila: Implications for Discovering Correlates of Sleep Pressure. bioRxiv 2022.09.30.510368; DOI: 10.1101/2022.09.30.510368
Abhilash, L., and Shafer, O.T., (2023) Parametric effects of light acting via multiple photoreceptor types contribute significantly to circadian entrainment in Drosophila melanogaster. Proc. R. Soc. B. 290: 20230149 [PMID: 37700655]
Emery, P., Klarsfeld, A., Stanewsky, R., and Shafer O.T. (2023) Sensitive Timing: A Reappraisal of Chronobiology's Foundational Texts. J. Biol. Rhythm. 38: 245-258 [PMID: 37226809]
Shafer, O.T., Gutierrez G.J., Li, K., Mildenhall, A., Spira, D., Marty, J., Lazar, A.A., and Fernandez M.P., (2022) Connectomic Analysis of the Drosophila Lateral Neuron Clock Cells Reveals the Synaptic Basis of Functional Pacemaker Classes. eLife 11:e79139 [PMID: 35766361]
Persons, J.L., Abhilash, L., Lopatkin, A.J., Roelofs, A., Bell, E.V., Fernandez, M.P., and Shafer O.T. (2022) PHASE: An Open-Source Program for the Analysis of Drosophila Phase, Activity and Sleep Under Entrainment. J. Biol. Rhythm. 37: 455-467 [PMID: 35727044]
B Kostadinov, HL Pettibone, EV Bell, X Zhou, A Pranevicius, OT Shafer and Fernandez, MP (2021). Open-source computational framework for studying Drosophila behavioral phase. STAR protocols 2 (1), 100285
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OT Shafer, AC Keene (2021). The Regulation of Drosophila Sleep. Current Biology 31 (1), R38-R49
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Florencia Fernandez-Chiappe, Christiane Hermann-Luibl, Alina Peteranderl, Nils Reinhard, Pingkalai R Senthilan, Marie Hieke, Mareike Selcho, Taishi Yoshii, Orie T Shafer, Nara I Muraro, Charlotte Helfrich-Förster (2020) . Dopamine Signaling in Wake-Promoting Clock Neurons Is Not Required for the Normal Regulation of Sleep in Drosophila. Journal of Neuroscience 40 (50), 9617-9633
B Chowdhury, OT Shafer (2020). Why the young sleep longer. Elife 9, e56833
Anthony Fiorino, Dakotah Thompson, Swathi Yadlapalli, Chang Jiang, Orie T Shafer, Pramod Reddy, Edgar Meyhofer. Parallelized, real-time, metabolic-rate measurements from individual Drosophila. Scientific reports 8 (1), 1-10
IU Hsu, JW Linsley, JE Varineau, OT Shafer, JY Kuwada (2018). Dstac is required for normal circadian activity rhythms in Drosophila. Chronobiology international 35 (7), 1016-1026
Fernández MP, Pettibone HL, Bogart JT, Roell CJ, Davey CE, Pranevicius A, Huynh KV, Lennox SM, Kostadinov BS and Shafer OT. (2020) Sites of Circadian Clock Neuron Plasticity Mediate Sensory Integration and Entrainment in Drosophila. Current Biology 30, 2225–2237.
Yadlapalli, S., Jiang, C., Bahle, A., Reddy, P., Meyhofer, E., Shafer, O.T. (2018). Circadian clock neurons constantly monitor environmental temperature to set sleep timing. Nature. doi: 10.1038/nature25740. PubMed
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Yadlapalli, S., Shafer, O.T. (2017). Thermoregulation: How a brain keeps its cool. eLife. 2017;6:e28109. doi: 10.7554/eLife.28109. PubMed
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Abruzzi, K.C., Zadina, A., Luo, W., Wiyanto, E., Rahman, R., Guo, F., Shafer, O., Rosbash, M. (2017). RNA-seq analysis of Drosophila clock and non-clock neurons reveals neuron-specific cycling and novel candidate neuropeptides. PLoS Genetics, 13(2), [e1006613]. doi: 10.1371/journal.pgen.1006613. PubMed
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Yao, Z., Bennett, A. J., Clem, J. L., & Shafer, O. T. (2016). The Drosophila Clock Neuron Network Features Diverse Coupling Modes and Requires Network-wide Coherence for Robust Circadian Rhythms. Cell Reports, 17(11), 2873-2881. doi: 10.1016/j.celrep.2016.11.053. PubMed
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Schlichting, M., Menegazzi, P., Lelito, K.R., Yao, Z., Buhl, E., Benetta, E.D., Bahle, A., Denike, J., Hodge, J.J., Helfrich-Förster, C., Shafer, O.T. (2016). A neural network underlying circadian entrainment and photoperiodic adjustment of sleep and activity in Drosophila. Journal of Neuroscience, 36(35), 9084-9096. doi: 10.1523/JNEUROSCI.0992-16.2016. PubMed
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Oh, Y., Yoon, S. E., Zhang, Q., Chae, H. S., Daubnerová, I., Shafer, O. T., Choe, J., Kim, Y. J. (2014). A Homeostatic Sleep-Stabilizing Pathway in Drosophila Composed of the Sex Peptide Receptor and Its Ligand, the Myoinhibitory Peptide. PLoS Biology, 12(10). doi: 10.1371/journal.pbio.1001974. PubMed
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Collins, B., Kaplan, H. S., Cavey, M., Lelito, K. R., Bahle, A. H., Zhu, Z., Macara, A.M., Roman, G., Shafer, O.T., Blau, J. (2014). Differentially Timed Extracellular Signals Synchronize Pacemaker Neuron Clocks. PLoS Biology, 12(9). doi: 10.1371/journal.pbio.1001959. PubMed
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Shafer, O. T., & Yao, Z. (2014). Pigment-dispersing factor signaling and circadian rhythms in insect locomotor activity. Current Opinion in Insect Science, 1, 73-80. doi: 10.1016/j.cois.2014.05.002. PubMed
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Yao, Z. and Shafer, O.T. (2014). The Drosophila Circadian Clock Is a Variably Coupled Network of Multiple Peptidergic Units. Science. 343(6178): 1516-1520. doi: 10.1126. PubMed
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Talsma, A.D., Christov, C.P., Terriente-Felix, A., Linneweber, G.A., Perea, D., Wayland, M., Shafer, O.T., and Miguel-Aliaga, I. (2012). Remote control of renal physiology by the intestinal neuropeptide pigment-dispersing factor in Drosophila. PNAS. July 9, 2012, doi: 10.1073/pnas.1200247109. PubMed
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Yao, Z., Macara, A.M., Lelito, K.R., Minosyan, T., and Shafer, O.T. (2012). Analysis of Functional Neuronal Connectivity in the Drosophila Brain. J Neurophysiol. [Epub ahead of print]. PubMed
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Lelito, K.R., and Shafer, O.T. (2012). Reciprocal Cholinergic and GABAergic Modulation of the Small Ventrolateral Pacemaker Neurons of Drosophila’s Circadian Clock Neuron Network. J Neurophysiol. Jan 25. Epub ahead of print. PubMed
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Beckwith, E.J., Lelito, K.R., Hsu, Y.W., Medina, B.M., Shafer, O.T., Ceriani, M.F., and de la Iglesia, H.O. (2011). Functional conservation of clock output signaling between flies and intertidal crabs. J Biol Rhythms. 26(6):518-29. PubMed
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Shafer, O.T., and Taghert, P.H. (2009). RNA-interference knockdown of Drosophila pigment dispersing factor in neuronal subsets: the anatomical basis of a neuropeptide’s circadian functions. PLoS One. 4(12):e8298. PubMed
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Shafer, O.T., Kim, D.J., Dunbar-Yaffe, R., Nikolaev, V.O., Lohse, M.J., and Taghert, P.H. (2008). Widespread receptivity to neuropeptide PDF throughout the neuronal circadian clock network of Drosophila revealed by real-time cyclic AMP imaging. Neuron. 58:223-237. PubMed
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Park, D., Shafer, O.T., Shepherd, S.P., Suh, H., Trigg, J.S., and Taghert, P.H. (2008). The Drosophila basic helix-loop-helix protein DIMMED directly activates PHM, a gene encoding a neuropeptide-amidating enzyme. Mol Cell Biol. 28:410-421. PubMed
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Helfrich-Förster, C., Shafer, O.T., Wulbeck, C., Grieshaber, E., Rieger, D., and Taghert, P.H. (2007). Development and morphology of the clock-gene-expressing lateral neurons of Drosophila melanogaster. J. Comp. Neurol. 500:47-70. PubMed
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Shafer, O.T., Helfrich-Förster, C., Renn, S.C.P., and Taghert, P.H. (2006). Re-evaluation of Drosophila melanogaster’s neuronal circadian pacemakers reveals new neuronal classes. Journal of Comparative Neurology. 498:180-93. PubMed
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Rieger, D., Shafer, O.T., Tomioka, K., and Helfrich-Förster, C. (2006). Functional analysis of circadian pacemaker neurons in Drosophila melanogaster. Journal of Neuroscience. 26:2531-43. PubMed
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Taghert, P.H., and Shafer, O.T. (2006). Mechanisms of clock output in the Drosophila circadian pacemaker system. J. Biol. Rhythms. 21:445-57. PubMed
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Mertens*, I., Vandingenen*, A., Johnson* E.C., Shafer*, O.T., Li W., Trigg, J.S., De Loof, A., Schoofs, L., and Taghert, P.H. (2005). PDF receptor signaling in Drosophila contributes to both circadian and geotactic behaviors. Neuron. 48: 213-119. PubMed
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Johnson, E.C., Shafer, O.T., Trigg, J.S., Park, J., Schooley, D.A., Dow, J.A., and Taghert P.H. (2005). A novel diuretic hormone receptor in Drosophila: evidence for conservation of CGRP signaling. Journal of Experimental Biology. 208:1239-46. PubMed
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Wülbeck, C., Szabo, G., Shafer, O.T., Helfrich-Förster, C., and Stanewsky, R. (2005). The novel Drosophila tim(blind) mutation affects behavioral rhythms but not periodic eclosion. Genetics. 169:751-66. PubMed
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Shafer*, O.T., Levine*, J.D., Truman, J.W., and Hall, J.C. (2004). Flies By Night: Effects of Changing Day Length on Drosophila’s Circadian Clock . Current Biology. 14: 424-432. PubMed
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Shafer, O.T., Rosbash, M.R., and Truman, J.W. (2002). Sequential Nuclear Accumulation of the Clock Proteins Period and Timeless in the Pacemaker Neurons of Drosophila melanogaster. Journal of Neuroscience. 22: 5946-5954. PubMed
Shafer, O.T. (2001). Blind clocks reveal elusive light input pathway in Drosophila. Trends in Neurosciences. 24:626-628. PubMed